A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
/data/users/willetse0745/Planaria-Genome-Project/fastq_planaria/data/users/willetse0745/Planaria-Genome-Project/trimmed_fastq/qc/data/groups/wheelenj/sequencing/20250916_M009242/busco_test/short_summary.specific.metazoa_odb10.busco_test.txt
General Statistics
| Sample Name | Complete BUSCOs | Complete and single-copy BUSCOs | Complete and duplicated BUSCOs | Fragmented BUSCOs | Missing BUSCOs | Median length | Mean length | Read N50 | Median Qual | Mean Qual | # Reads (K) | Total Bases (Mb) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| busco_test | short_summary.specific.metazoa_odb10.busco_test | 270.0 | 245.0 | 25.0 | 76.0 | 608.0 | |||||||
| qc | NanoStats | 9585bp | 13166bp | 16392bp | 20.7 | 18.4 | 372.0K | 4898.0Mb | |||||
| qc | NanoStats_raw | 3033bp | 6122bp | 13039bp | 18.6 | 16.7 | 1000.0K | 6122.5Mb |
BUSCO
6.0.0
Assesses genome assembly and annotation completeness.URL: http://busco.ezlab.orgDOI: 10.1093/bioinformatics/btv351
BUSCO v2 provides quantitative measures for the assessment of genome assembly, gene set, and transcriptome completeness, based on evolutionarily-informed expectations of gene content from near-universal single-copy orthologs selected from OrthoDB v9.Lineage: metazoa_odb10
NanoStat
Reports various statistics for long read dataset in FASTQ, BAM, or albacore sequencing summary format (supports NanoPack; NanoPlot, NanoComp).URL: https://github.com/wdecoster/nanostat; https://github.com/wdecoster/nanoplotDOI: 10.1093/bioinformatics/bty149
Programs are part of the NanoPack family for summarising results of sequencing on Oxford Nanopore methods (MinION, PromethION etc.)Summary Statistics (FASTQ)
| Sample Name | Median length | Mean length | Read N50 | Median Qual | Mean Qual | # Reads (K) | Total Bases (Mb) |
|---|---|---|---|---|---|---|---|
| qc | NanoStats | 9585bp | 13166bp | 16392bp | 20.7 | 18.4 | 372.0K | 4898.0Mb |
| qc | NanoStats_raw | 3033bp | 6122bp | 13039bp | 18.6 | 16.7 | 1000.0K | 6122.5Mb |
Reads by quality
Read counts categorised by read quality (Phred score).
Sequencing machines assign each generated read a quality score using the Phred scale. The phred score represents the liklelyhood that a given read contains errors. High quality reads have a high score.
Software Versions
Software Versions lists versions of software tools extracted from file contents.
| Software | Version |
|---|---|
| BUSCO | 6.0.0 |